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A bis-ANS solution (10 μmol, equal to twice the amount required to saturate the binding sites) was added to a 0.1 mg/mL peptide solution in phosphate buffer (pH 7.2).
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To confirm the specificity, competition using 30-fold excess unlabelled oligonucleotides containing consensus or mutated STAT3 binding sites were added for 20 min at room temperature, after incubation with the radio-labelled oligonucleotides.
The cells were then re-suspended in 50 µl 0.5%BSA/PBS containing a 1 50 dilution of sheep anti-human γ chain (FITC) fluorescein isothiocyanate-conjugated antibody (The Binding Site) was added to each well.
A ribosome binding site was added by PCR and is shown in boldface type.
To determine if the SH2 binding is tyrosine site dependent, a synthesized phosphopeptide corresponding to EGFR tyrosine 1068, containing the Grb2 SH2 consensus binding site, was added as a blocker.
If excess competitor DNA containing a seven-nucleotide mutation of the BP1 binding site was added (mbcl-2), however, little competition for binding was observed (lanes 5 and 6).
Six tandem copies of a synthetic miR-312 binding site were added to the 3' UTR of a UAS-GFP transgene (Fig. 1C).
Eventually, ribosome binding site and T7 promoter site were added to the fusion construct by the primer P26 and P21, respectively, in the final two-step PCR (i.e., where P30 was used as a reverse PCR).
Also as expected, we observed a higher level of enrichment with the REP protein as opposed to the FL mutant when the putative TBPH binding site (UG 9 was added to head extract samples (Figure 6A).
Since Mg2+ ions are known to be involved in ATP binding and can potentially influence binding of inhibitors to the ATP-binding site, MgCl2 was added.
Nonspecific binding sites were blocked by adding blocking buffer [1% (v/v) bovine serum albumin (BSA) diluted in PSB containing 0.05% (v/v) Tween-20 and 0.02% sodium azide (PBS-AT)] and incubating for 2 h at 37°C.
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